Related papers: Treewidth distance on phylogenetic trees
In Graph Minors III, Robertson and Seymour write: "It seems that the tree-width of a planar graph and the tree-width of its geometric dual are approximately equal - indeed, we have convinced ourselves that they differ by at most one". They…
Phylogenetic networks provide a more general description of evolutionary relationships than rooted phylogenetic trees. One way to produce a phylogenetic network is to randomly place $k$ arcs between the edges of a rooted binary phylogenetic…
The tree-cut width of a graph is a graph parameter defined by Wollan [J. Comb. Theory, Ser. B, 110:47-66, 2015] with the help of tree-cut decompositions. In certain cases, tree-cut width appears to be more adequate than treewidth as an…
In a directed graph $G$ with non-correlated edge lengths and costs, the \emph{network design problem with bounded distances} asks for a cost-minimal spanning subgraph subject to a length bound for all node pairs. We give a bi-criteria…
Building trees to represent or to fit distances is a critical component of phylogenetic analysis, metric embeddings, approximation algorithms, geometric graph neural nets, and the analysis of hierarchical data. Much of the previous…
In this work we study the interleaving distance between merge trees from a combinatorial point of view. We use a particular type of matching between trees to obtain a novel formulation of the distance. With such formulation, we tackle the…
We consider the problem of learning the structure of undirected graphical models with bounded treewidth, within the maximum likelihood framework. This is an NP-hard problem and most approaches consider local search techniques. In this…
Limits of graphs were initiated recently in the two extreme contexts of dense and bounded degree graphs. This led to elegant limiting structures called graphons and graphings. These approach have been unified and generalized by authors in a…
For a tree decomposition $\mathcal{T}$ of a graph $G$, by $\mu(\mathcal{T})$ we denote the size of a largest induced matching in $G$ all of whose edges intersect one bag of $\mathcal{T}$. Induced matching treewidth of a graph $G$ is the…
Motivated by a recent result of Elberfeld, Jakoby and Tantau showing that $\mathsf{MSO}$ properties are Logspace computable on graphs of bounded tree-width, we consider the complexity of computing the determinant of the adjacency matrix of…
Geometric graphs appear in many real-world data sets, such as road networks, sensor networks, and molecules. We investigate the notion of distance between embedded graphs and present a metric to measure the distance between two geometric…
Minimum Bisection denotes the NP-hard problem to partition the vertex set of a graph into two sets of equal sizes while minimizing the width of the bisection, which is defined as the number of edges between these two sets. We first consider…
Tree-decompositions of graphs are of fundamental importance in structural and algorithmic graph theory. The main property of tree-decompositions is the width (the maximum size of a bag minus 1). We show that every graph has a…
Treewidth is a useful tool in designing graph algorithms. Although many NP-hard graph problems can be solved in linear time when the input graphs have small treewidth, there are problems which remain hard on graphs of bounded treewidth. In…
Algorithmic meta-theorems, stating that graph properties expressible in some particular logic can be decided efficiently in graph classes having some specific structural properties, are now standard in sequential graph algorithms. One of…
Parameterised subgraph counting problems are the most thoroughly studied topic in the theory of parameterised counting, and there has been significant recent progress in this area. Many of the existing tractability results for parameterised…
Semidirected networks have received interest in evolutionary biology as the appropriate generalization of unrooted trees to networks, in which some but not all edges are directed. Yet these networks lack proper theoretical study. We define…
We introduce the tree distance, a new distance measure on graphs. The tree distance can be computed in polynomial time with standard methods from convex optimization. It is based on the notion of fractional isomorphism, a characterization…
Motivated by the algorithmic study of 3-dimensional manifolds, we explore the structural relationship between the JSJ decomposition of a given 3-manifold and its triangulations. Building on work of Bachman, Derby-Talbot and Sedgwick, we…
We introduce the notion of \emph{bounded diameter arboricity}. Specifically, the \emph{diameter-$d$ arboricity} of a graph is the minimum number $k$ such that the edges of the graph can be partitioned into $k$ forests each of whose…